SUPERFAMILY 1.75 HMM library and genome assignments server


Bromodomain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Bromodomain-like [ 47363] (15)
Superfamily:   Bromodomain [ 47370]
Families:   Bromodomain [ 47371] (4)


Superfamily statistics
Genomes (495) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 13,400 14,142 8
Proteins 10,507 10,963 7


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 6.342e-10 Least Informative Direct
Biological Process (BP) developmental process 1.267e-08 Least Informative Direct
Biological Process (BP) protein metabolic process 2.07e-07 Least Informative Direct
Biological Process (BP) single-organism cellular process 6.307e-07 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000172 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.0003406 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.001178 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.002309 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.00166 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 1.882e-09 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1.573e-07 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 5.562e-05 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0008529 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0.2581 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.04444 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.02712 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.09819 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.004449 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.03919 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.5138 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.3447 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.03219 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.03761 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.04244 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.1183 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.5936 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.4252 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.3562 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.9104 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.01204 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.0719 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.9239 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.09183 Moderately Informative Inherited
Biological Process (BP) tissue development 0.7734 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.7362 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 0 Informative Direct
Biological Process (BP) transcription, DNA-dependent 3.037e-10 Informative Direct
Biological Process (BP) DNA metabolic process 1.478e-08 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1.148e-06 Informative Direct
Biological Process (BP) positive regulation of gene expression 1.358e-06 Informative Direct
Biological Process (BP) cardiovascular system development 4.017e-06 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 4.785e-06 Informative Direct
Biological Process (BP) muscle structure development 1.085e-05 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 2.514e-05 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 6.978e-05 Informative Direct
Biological Process (BP) growth 9.526e-05 Informative Direct
Biological Process (BP) regulation of mitotic cell cycle 0.0001353 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 0.0001667 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.000295 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 1 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.3023 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.1085 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.05839 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.2835 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.001403 Informative Inherited
Biological Process (BP) tube development 0.2017 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.5397 Informative Inherited
Biological Process (BP) cell cycle process 0.02855 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.09917 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.03102 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.3184 Informative Inherited
Biological Process (BP) central nervous system development 0.867 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.08059 Informative Inherited
Biological Process (BP) cell projection organization 0.2967 Informative Inherited
Biological Process (BP) generation of neurons 0.851 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.02226 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1512 Informative Inherited
Biological Process (BP) purine ribonucleoside metabolic process 0.004447 Informative Inherited
Biological Process (BP) glycosyl compound catabolic process 0.001395 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.007484 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 0.001789 Informative Inherited
Biological Process (BP) organophosphate catabolic process 0.003016 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.7108 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 0.006882 Informative Inherited
Biological Process (BP) epithelium development 0.4314 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.05183 Informative Inherited
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) histone modification 0 Highly Informative Direct
Biological Process (BP) placenta development 2.125e-14 Highly Informative Direct
Biological Process (BP) regulation of binding 7.232e-10 Highly Informative Direct
Biological Process (BP) epithelial tube formation 1.588e-06 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 2.493e-05 Highly Informative Direct
Biological Process (BP) erythrocyte differentiation 2.624e-05 Highly Informative Direct
Biological Process (BP) ATP metabolic process 4.103e-05 Highly Informative Direct
Biological Process (BP) neural tube development 5.387e-05 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 5.904e-05 Highly Informative Direct
Biological Process (BP) gene silencing 7.07e-05 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.000189 Highly Informative Direct
Biological Process (BP) chromosome segregation 0.0002584 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0.0005799 Highly Informative Direct
Biological Process (BP) protein deacylation 0.0006636 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0006951 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0.0008786 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 0.1299 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.0171 Highly Informative Inherited
Biological Process (BP) negative regulation of transcription, DNA-dependent 0.3661 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in neuron differentiation 0.06949 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.3383 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.01858 Highly Informative Inherited
Biological Process (BP) DNA modification 0.016 Highly Informative Inherited
Biological Process (BP) internal protein amino acid acetylation 0.002697 Highly Informative Inherited
Biological Process (BP) protein methylation 0.3613 Highly Informative Inherited
Biological Process (BP) cellular component disassembly 0.005274 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.405 Highly Informative Inherited
Biological Process (BP) meiosis 0.006206 Highly Informative Inherited
Biological Process (BP) purine ribonucleotide catabolic process 0.001002 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 0.00173 Highly Informative Inherited
Biological Process (BP) developmental growth 0.007101 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 2.054e-07 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 3.184e-14 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.001932 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 0 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0 Informative Direct
Molecular Function (MF) DNA binding 9.084e-08 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.0008429 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.1564 Informative Inherited
Molecular Function (MF) kinase activity 0.2688 Informative Inherited
Molecular Function (MF) receptor binding 0.6762 Informative Inherited
Molecular Function (MF) acetyltransferase activity 0 Highly Informative Direct
Molecular Function (MF) protein binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 1.563e-15 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 2.948e-07 Highly Informative Direct
Molecular Function (MF) protein kinase activity 0.02526 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1.497e-11 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 2.398e-13 Least Informative Direct
Cellular Component (CC) protein complex 6.769e-09 Least Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 3.971e-11 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) nucleolus 3.109e-05 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.2425 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 0.6203 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1571 Informative Inherited
Cellular Component (CC) kinetochore 2.268e-10 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 1.667e-06 Highly Informative Direct
Cellular Component (CC) spindle 0.6908 Highly Informative Inherited
Cellular Component (CC) chromatin 0.1853 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0.7336Least InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0Moderately InformativeDirect
Enzyme Commission (EC)Methyltransferases0.01673Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase6.826e-11InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)viral infectious disease0.5225InformativeInherited
Disease Ontology (DO)progressive multifocal leukoencephalopathy0.0005877Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.1352Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of head and neck0.1535Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.5902Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.0163Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.04801Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digit0.1787Moderately InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0.237Moderately InformativeInherited
Phenotypic Abnormality (PA)Short digit0.0008335InformativeDirect
Phenotypic Abnormality (PA)Abnormality of phalanx of finger0.003659InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eyelid0.01706InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hair0.02166InformativeInherited
Phenotypic Abnormality (PA)Abnormality of toe0.09601InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eyelashes1.286e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Short phalanx of finger1.967e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Delayed speech and language development0.0005321Highly InformativeDirect
Phenotypic Abnormality (PA)Hypertrichosis0.0009221Highly InformativeDirect
Phenotypic Abnormality (PA)Clubbing0.001407Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the phalanges of the toes0.008431Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.6067Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.01311Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6429Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cranium morphology0.07715InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.185InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube closure0.0001584Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant0.007523Least InformativeInherited
Worm Phenotype (WP)growth variant0.733Least InformativeInherited
Worm Phenotype (WP)organ system development variant1.098e-06Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.0004989Moderately InformativeDirect
Worm Phenotype (WP)VPC competence variant1.002e-06InformativeDirect
Worm Phenotype (WP)organism stress response variant2.911e-06InformativeDirect
Worm Phenotype (WP)sensillum morphology variant6.808e-06InformativeDirect
Worm Phenotype (WP)sick0.0009244InformativeDirect
Worm Phenotype (WP)vulva development variant0.02239InformativeInherited
Worm Phenotype (WP)organism UV hypersensitive8.96e-10Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)metabolism and growth0.09373Least InformativeInherited
Yeast Phenotype (YP)chromosome/plasmid maintenance2.693e-05InformativeDirect
Yeast Phenotype (YP)chemical compound accumulation0.0009192InformativeDirect
Yeast Phenotype (YP)lifespan0.2165InformativeInherited
Yeast Phenotype (YP)ionic stress resistance0.0005708Highly InformativeDirect
Yeast Phenotype (YP)chronological lifespan0.0007092Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)modifier of variegation0.000259InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)acellular anatomical structure0.01248Moderately InformativeInherited
Fly Anatomy (FA)cuticular specialization0.0008107InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo0.0001887Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.8257Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases4.814e-16Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.001399Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.007174Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.731Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase5.536e-11InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases2.787e-07InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0001658InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides0.04096InformativeInherited
Enzyme Commission (EC)Non-specific protein-tyrosine kinase2.527e-09Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation8.944e-10Moderately InformativeDirect
Biological processCell cycle4.606e-05Moderately InformativeDirect
Biological processHost-virus interaction0.0001328Moderately InformativeDirect
Biological processDifferentiation0.0001595Moderately InformativeDirect
Biological processBiological rhythms2.491e-10InformativeDirect
Biological processMeiosis1.255e-07InformativeDirect
Biological processSporulation8.359e-07InformativeDirect
Biological processNeurogenesis2.589e-06InformativeDirect
Biological processSpermatogenesis1.291e-05Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentChromosome7.824e-07InformativeDirect
Coding sequence diversityAlternative splicing1.128e-05Least InformativeDirect
Coding sequence diversityChromosomal rearrangement7.32e-09InformativeDirect
DiseaseTumor suppressor2.422e-07Moderately InformativeDirect
DomainRepeat8.19e-05Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger1.359e-09Moderately InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionZinc1.13e-13Least InformativeDirect
Molecular functionDNA-binding8.076e-08Moderately InformativeDirect
Post-translational modificationTransferase0.6375Least InformativeInherited
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor5.732e-10Moderately InformativeDirect
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationAcyltransferase1.15e-13InformativeDirect
Post-translational modificationHelicase2.003e-07InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation8.671e-06Moderately InformativeDirect
Post-translational modificationIsopeptide bond1.118e-05Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR001487 SSF47370 Protein matches
Abstract Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins [PubMed1350857]. Bromodomains can interact with acetylated lysine [PubMed9175470]. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate.

The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [PubMed7580139].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 6 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Bromodomain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 6 hidden Markov models representing the Bromodomain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]